Novel insights into Pinus species plastids genome through phylogenetic relationships and repeat sequence analysis.
Pinus is one of the most economical and ecological important conifers, model specie for studying sequence divergence and molecular phylogeney of gymnosperms. The less availability of information for genome resources enable researchers to conduct evolutionary studies of Pinus species. To improve unde...
| Main Authors: | , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2022-01-01
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| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0262040 |
| _version_ | 1827963300054302720 |
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| author | Umar Zeb Xiukang Wang Sajid Fiaz Azizullah Azizullah Asad Ali Shah Sajjad Ali Fazli Rahim Hafiz Ullah Umed Ali Leghari Weiqiang Wang Taufiq Nawaz |
| author_facet | Umar Zeb Xiukang Wang Sajid Fiaz Azizullah Azizullah Asad Ali Shah Sajjad Ali Fazli Rahim Hafiz Ullah Umed Ali Leghari Weiqiang Wang Taufiq Nawaz |
| author_sort | Umar Zeb |
| collection | DOAJ |
| description | Pinus is one of the most economical and ecological important conifers, model specie for studying sequence divergence and molecular phylogeney of gymnosperms. The less availability of information for genome resources enable researchers to conduct evolutionary studies of Pinus species. To improve understanding, we firstly reported, previously released chloroplast genome of 72 Pinus species, the sequence variations, phylogenetic relationships and genome divergence among Pinus species. The results displayed 7 divergent hotspot regions (trnD-GUC, trnY-GUA, trnH-GUG, ycf1, trnL-CAA, trnK-UUU and trnV-GAC) in studied Pinus species, which holds potential to utilized as molecular genetic markers for future phylogenetic studies in Pinnus species. In addition, 3 types of repeats (tandem, palindromic and dispersed) were also studied in Pinus species under investigation. The outcome showed P. nelsonii had the highest, 76 numbers of repeats, while P. sabiniana had the lowest, 13 13 numbers of repeats. It was also observed, constructed phylogenetic tree displayed division into two significant diverged clades: single needle (soft pine) and double-needle (hard pine). Theoutcome of present investigation, based on the whole chloroplast genomes provided novel insights into the molecular based phylogeny of the genus Pinus which holds potential for its utilization in future studies focusing genetic diversity in Pinnus species. |
| first_indexed | 2024-04-09T16:56:58Z |
| format | Article |
| id | doaj.art-5ae7f9e08d4f4f2f99221c8529bae386 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-04-09T16:56:58Z |
| publishDate | 2022-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-5ae7f9e08d4f4f2f99221c8529bae3862023-04-21T05:35:21ZengPublic Library of Science (PLoS)PLoS ONE1932-62032022-01-01171e026204010.1371/journal.pone.0262040Novel insights into Pinus species plastids genome through phylogenetic relationships and repeat sequence analysis.Umar ZebXiukang WangSajid FiazAzizullah AzizullahAsad Ali ShahSajjad AliFazli RahimHafiz UllahUmed Ali LeghariWeiqiang WangTaufiq NawazPinus is one of the most economical and ecological important conifers, model specie for studying sequence divergence and molecular phylogeney of gymnosperms. The less availability of information for genome resources enable researchers to conduct evolutionary studies of Pinus species. To improve understanding, we firstly reported, previously released chloroplast genome of 72 Pinus species, the sequence variations, phylogenetic relationships and genome divergence among Pinus species. The results displayed 7 divergent hotspot regions (trnD-GUC, trnY-GUA, trnH-GUG, ycf1, trnL-CAA, trnK-UUU and trnV-GAC) in studied Pinus species, which holds potential to utilized as molecular genetic markers for future phylogenetic studies in Pinnus species. In addition, 3 types of repeats (tandem, palindromic and dispersed) were also studied in Pinus species under investigation. The outcome showed P. nelsonii had the highest, 76 numbers of repeats, while P. sabiniana had the lowest, 13 13 numbers of repeats. It was also observed, constructed phylogenetic tree displayed division into two significant diverged clades: single needle (soft pine) and double-needle (hard pine). Theoutcome of present investigation, based on the whole chloroplast genomes provided novel insights into the molecular based phylogeny of the genus Pinus which holds potential for its utilization in future studies focusing genetic diversity in Pinnus species.https://doi.org/10.1371/journal.pone.0262040 |
| spellingShingle | Umar Zeb Xiukang Wang Sajid Fiaz Azizullah Azizullah Asad Ali Shah Sajjad Ali Fazli Rahim Hafiz Ullah Umed Ali Leghari Weiqiang Wang Taufiq Nawaz Novel insights into Pinus species plastids genome through phylogenetic relationships and repeat sequence analysis. PLoS ONE |
| title | Novel insights into Pinus species plastids genome through phylogenetic relationships and repeat sequence analysis. |
| title_full | Novel insights into Pinus species plastids genome through phylogenetic relationships and repeat sequence analysis. |
| title_fullStr | Novel insights into Pinus species plastids genome through phylogenetic relationships and repeat sequence analysis. |
| title_full_unstemmed | Novel insights into Pinus species plastids genome through phylogenetic relationships and repeat sequence analysis. |
| title_short | Novel insights into Pinus species plastids genome through phylogenetic relationships and repeat sequence analysis. |
| title_sort | novel insights into pinus species plastids genome through phylogenetic relationships and repeat sequence analysis |
| url | https://doi.org/10.1371/journal.pone.0262040 |
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